Biology subjects

Asally, M.

Publications and source records attributed to Asally, M..

9 recordsLinked to original sources

bioRxiv2026

A Dipolar Photoswitch Modulates Bacterial Membrane Potential and Reveals Context-dependent Bioelectrical Circuitry

Dynamic bioelectric signalling in bacteria regulates physiology and collective behaviours, yet tools to perturb microbial membrane voltage with high spatiotemporal control remain limited. Here we introduce MTP2, a non-genetic, membrane-targeting azobenzene photoswitch that enables optical modulation of bacterial membrane potential by tuning interfacial electrostatics in Bacillus subtilis. MTP2 associates strongly with the cell envelope and shifts the resting potential to more negative values in the dark, while 470-nm illumination evokes a robust, reversible depolarization at the single-cell level. Although MTP2 photoisomerization is ultrafast (picoseconds), the voltage waveforms unfold over seconds to minutes, indicating that the response is set by homeostatic ion transport rather than by MTP2 photochemistry. Genetic and pharmacological perturbations show that K+ conductance, Cl--sensitive pathways, and active transport reshape the amplitude, kinetics and even polarity of the optical response, revealing a context-dependent interplay between a passive molecular perturbation and endogenous bioelectric circuitry. As a functional proof of concept, kanamycin efficacy co-varies with the optically tuned voltage state. Together, these results establish MTP2 as a reversible chemical optostimulator for probing and controlling microbial electrophysiology.

microbiology↗

bioRxiv2023

Bioelectrical antimicrobial susceptivity testing (BeAST) with the budding yeast S. cerevisiae

Membrane potential is a useful marker for antimicrobial susceptibility testing (AST) due to the fundamental characteristic of vital cells. However, the difficulties associated with measuring the membrane potential in microbes restrict its broad application. In this study, we present Bioelectrical AST (BeAST) using the model fungus Saccharomyces cerevisiae. Using fluorescent indicators (DiBAC4(3), ThT and TMRM), we measured plasma and mitochondrial membrane-potential dynamics upon electric stimulation. We find that a 2.5-second electric stimulation induces hyperpolarisation of plasma membrane lasting 20 minutes in vital S. cerevisiae, but depolarisation in inhibited cells. The numerical simulation of FitzHugh-Nagumo model successfully recapitulates vitality-dependent dynamics. The model also suggests that the magnitude of plasma-membrane potential dynamics (PMD) correlates with the degree of inhibition. To test this prediction and to examine if BeAST can be used for assessing novel anti-fungal compounds, we treat cells with biogenic silver nanoparticles (bioAgNPs) synthesised using orange fruit flavonoids and Fusarium oxysporum. Comparing BeAST with optical density assay with various stressors, we show that PMD correlates with the severityof growth inhibitions. These results suggest that BeAST holds promise for screening anti-fungal compounds, offering a valuable approach to tackling antimicrobial resistance.

microbiology↗

bioRxiv2022

Membrane Targeted Azobenzene Drives Optical Modulation of Bacterial Membrane Potential

Recent studies have shown that bacterial membrane potential is dynamic and plays signalling roles. Yet, little is still known about the mechanisms of bacterial membrane potential regulation -owing in part to a scarcity of appropriate research tools. Optical modulation of bacterial membrane potential could fill this gap and provide a new approach to studying and controlling bacterial physiology and electrical signalling. Here, we show that a membrane-targeted azobenzene (Ziapin2) can be used to photo-modulate the membrane potential in cells of the Gram-positive bacterium Bacillus subtilis. We found that upon exposure to blue-green light ({lambda} = 470 nm), isomerization of Ziapin2 in the bacteria membrane induces hyperpolarisation of the potential. In order to investigate the origin of this phenomenon we examined ion-channel-deletion strains and ion channel blockers. We found that in presence of the chloride channel blocker idanyloxyacetic acid-94 (IAA-94) or in absence of KtrAB potassium transporter, the hyperpolarisation response is attenuated. These results reveal that the Ziapin2 isomerization can induce ion channel opening in the bacterial membrane, and suggest that Ziapin2 can be used for studying and controlling bacterial electrical signalling. This new optical tool can contribute to better understand microbial phenomena, such as biofilm electric signalling and antimicrobial resistance.

biophysics↗

bioRxiv2022

Phase-separated nuclear bodies of nucleoporin fusions, SET-NUP214 and NUP98-HOXA9, promote condensation of MLL1 and CRM1 to activate target genes

Nucleoporins NUP98 and NUP214 form chimeric fusion proteins that assemble into phase-separated nuclear bodies. However, the function and physiological significance of these nuclear bodies remain largely unknown. Previously, we reported that both NUP98-HOXA9 and SET-NUP214 are recruited to HOX cluster regions via chromatin-bound CRM1, a nuclear export receptor (Oka et al., 2019). Here, we show that these nuclear bodies promote the condensation of mixed lineage leukemia 1 (MLL1), a histone methyltransferase which is essential for the maintenance of HOX gene expression. Our analysis revealed that SET-NUP214 and CRM1 robustly associate with MLL1 to form nuclear bodies and are colocalized on chromatin. We also showed that MLL1 and CRM1 are recruited to the nuclear bodies of NUP98-HOXA9 and that the NUP98-HOXA9/CRM1/MLL1 complex accumulates on its target gene loci, including HOX clusters and MEIS1. These phenomena were not observed in phase-separation-deficient mutants or non-DNA-binding mutants of NUP98-HOXA9. Collectively, these results show that both phase separation and proper targeting of nucleoporin fusions to specific sites could enhance the activation of a wide range of target genes by promoting the condensation of MLL1 and CRM1.

cell biology↗

bioRxiv2020

Scanning ion conductance microscopy reveals differences in the ionic environments of gram positive and negative bacteria

This paper reports on the use of scanning ion conductance microscopy (SICM) to locally map the ionic properties and charge environment of two live bacterial strains: the gramnegative Escherichia coli and the gram-positive Bacillus subtilis. SICM results find heterogeneities across the bacterial surface, and significant differences among the grampositive and -negative bacteria. The bioelectrical environment of the B. subtilis was found to be considerably more negatively charged compared to E. coli. SICM measurements, fitted to a simplified finite element method (FEM) model, revealed surface charge values of -80 to -140 mC m-2 for the gram-negative E. coli. The gram-positive B. subtilis show a much higher conductivity around the cell wall, and surface charge values between -350 and -450 mC m-2 were found using the same simplified model. SICM was also able to detect regions of high negative charge near B. subtilis, not detected in the topographical SICM response and attributed to extracellular polymeric substance. To further explore how the B. subtilis cell wall structure can influence the SICM current response, a more comprehensive FEM model, accounting for the physical properties of the gram-positive cell wall, was developed. The new model provides a more realistic description of the cell wall and allowed investigation of the relation between its key properties and SICM currents, building foundations to further investigate and improve understanding of the gram-positive cellular microenvironment. O_FIG_DISPLAY_L [Figure 1] M_FIG_DISPLAY C_FIG_DISPLAY

microbiology↗

bioRxiv2020

Swarming bacteria undergo localized dynamic phase transition to form stress-induced biofilms

Self-organized multi-cellular behaviors enable cells to adapt and tolerate stressors to a greater degree than isolated cells. However, whether and how cellular communities alter their collective behaviors adaptively upon exposure to stress is largely unclear. Here we address this question using Bacillus subtilis, a model system for bacterial multicellularity. We discover that, upon exposure to a spatial gradient of kanamycin, swarming bacteria activate matrix genes and transit to biofilms. The initial stage of this transition is underpinned by a stress-induced multi-layer formation, emerging from a biophysical mechanism reminiscent to motility-induced phase separation (MIPS). The physical nature of the process suggests that stressors which suppress the expansion of swarms would induce biofilm formation. Indeed, a simple physical barrier also induces a swarm-to-biofilm transition. Based on the gained insight, we propose a promising strategy of antibiotic treatment to effectively inhibit the transition from swarms to biofilms by targeting the localized phase transition.

biophysics↗

bioRxiv2019

Electrically induced bacterial membrane potential dynamics correspond to cellular proliferation capacity

Membrane-potential dynamics mediate bacterial electrical signaling at both intra- and inter- cellular levels. Membrane potential is also central to cellular proliferation. It is unclear whether the cellular response to external electrical stimuli is influenced by the cell proliferative capacity. A new strategy enabling electrical stimulation of bacteria with simultaneous monitoring of single-cell membrane potential dynamics would allow bridging this knowledge gap and further extend electrophysiological studies into the field of microbiology. Here we report that an identical electrical stimulus can cause opposite polarization dynamics depending on cellular proliferation capacity. This was demonstrated using two model organisms, namely B. subtilis and E. coli, and by developing an apparatus enabling exogenous electrical stimulation and single-cell time-lapse microscopy. Using this bespoke apparatus, we show that a 2.5 sec electrical stimulation causes hyperpolarization in unperturbed cells. Measurements of intracellular K+ and the deletion of the K+ channel suggested that the hyperpolarization response is caused by the K+ efflux through the channel. When cells are pre-exposed to UV-violet light, the same electrical stimulation depolarizes cells instead of causing hyperpolarization. A mathematical model extended from the FitzHugh-Nagumo neuron model suggested that the opposite response dynamics are due to the shift in resting membrane potential. As predicted by the model, electrical stimulation only induced depolarization when cells are treated with antibiotics, protonophore or alcohol. Therefore, electrically induced membrane potential dynamics offer a novel and reliable approach for rapid detection of proliferative bacteria and determination of their sensitivity to antimicrobial agents at the single-cell level.

microbiology↗

bioRxiv2018

Electrical-charge accumulation enables integrative quality control during B. subtilis sporulation

Quality control of offspring is important for the survival of cells. However, the mechanism by which quality of offspring cells may be monitored while running genetic programs of cellular differentiation remains largely unclear. Here we investigated a quality control system during Bacillus subtilis spore formation by combining single-cell time-lapse microscopy, molecular biology and mathematical modelling. Our results revealed that the quality-control system via premature germination is coupled with the accumulation of cations on the surface of developing forespores. Specifically, the forespores accumulating less cations on their surface are more likely to be aborted. This charge accumulation system enables the projection of multidimensional information about the external environment and morphological development of the forespore onto a one-dimensional information of cation accumulation. Based on the insight we gain, we propose a novel use of Nernstian chemicals for reducing the yield and quality of Bacillus endospores.

biophysics↗

bioRxiv2017

Impact of spatial organization on a novel auxotrophic interaction among soil microbes

A key prerequisite to achieve a deeper understanding of microbial communities and to engineer synthetic ones is to identify the individual metabolic interactions among key species and how these interactions are affected by different environmental factors. Deciphering the physiological basis of species-species and species-environment interactions in spatially organized environment requires reductionist approaches using ecologically and functionally relevant species. To this end, we focus here on a specific defined system to study the metabolic interactions in a spatial context among a plant-beneficial endophytic fungus Serendipita indica, and the soil-dwelling model bacterium Bacillus subtilis. Focusing on the growth dynamics of S. indica under defined conditions, we identified an auxotrophy in this organism for thiamine, which is a key co-factor for essential reactions in the central carbon metabolism. We found that S. indica growth is restored in thiamine-free media, when co-cultured with B. subtilis. The success of this auxotrophic interaction, however, was dependent on the spatial and temporal organization of the system; the beneficial impact of B. subtilis was only visible when its inoculation was separated from that of S. indica either in time or space. These findings describe a key auxotrophic interaction in the soil among organisms that are shown to be important for plant ecosystem functioning, and point to the potential importance of spatial and temporal organization for the success of auxotrophic interactions. These points can be particularly important for engineering of minimal functional synthetic communities as plant-seed treatments and for vertical farming under defined conditions.

systems biology↗